HEADER NUCLEOTIDE-BINDING 24-AUG-06 2J46 TITLE WATER STRUCTURE OF T. AQUATICUS FFH NG DOMAIN AT 1.1A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION PARTICLE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: G DOMAIN, RESIDUES 1-296; COMPND 5 SYNONYM: FIFTY-FOUR HOMOLOG; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 3 ORGANISM_TAXID: 271; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBONUCLEOPROTEIN, NUCLEOTIDE-BINDING, SRP, FFH, WATER, GTPASE, RNA- KEYWDS 2 BINDING, GTP-BINDING, SIGNAL RECOGNITION PARTICLE EXPDTA X-RAY DIFFRACTION AUTHOR D.M.FREYMANN,U.D.RAMIREZ REVDAT 4 13-DEC-23 2J46 1 LINK REVDAT 3 24-FEB-09 2J46 1 VERSN REVDAT 2 06-DEC-06 2J46 1 JRNL REVDAT 1 30-NOV-06 2J46 0 JRNL AUTH U.D.RAMIREZ,D.M.FREYMANN JRNL TITL ANALYSIS OF PROTEIN HYDRATION IN ULTRA-HIGH RESOLUTION JRNL TITL 2 STRUCTURES OF THE SRP GTPASE FFH JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 1520 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 17139088 JRNL DOI 10.1107/S0907444906040807 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH U.D.RAMIREZ,G.MINASOV,P.J.FOCIA,R.STROUD,P.WALTER,P.KUHN, REMARK 1 AUTH 2 D.M.FREYMANN REMARK 1 TITL STRUCTURAL BASIS FOR MOBILITY IN THE 1.1A CRYSTAL STRUCTURE REMARK 1 TITL 2 OF THE NG DOMAIN OF T. AQUATICUS FFH REMARK 1 REF J.MOL.BIOL. V. 320 783 2002 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12095255 REMARK 1 DOI 10.1016/S0022-2836(02)00476-X REMARK 2 REMARK 2 RESOLUTION. 1.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.1 REMARK 3 NUMBER OF REFLECTIONS : 183740 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 9676 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.14 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 11618 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE SET COUNT : 586 REMARK 3 BIN FREE R VALUE : 0.2350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4563 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 559 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.038 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.037 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.025 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.163 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.974 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5456 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5339 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7429 ; 1.621 ; 2.011 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12356 ; 0.884 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 741 ; 5.554 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 244 ;33.083 ;22.541 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1026 ;12.990 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 76 ;16.365 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 825 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6383 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1147 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1162 ; 0.233 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5324 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2655 ; 0.170 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3227 ; 0.080 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 311 ; 0.201 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 43 ; 0.250 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 159 ; 0.340 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 40 ; 0.168 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4546 ; 4.379 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5572 ; 4.748 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2204 ; 7.838 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1857 ;10.239 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NO WATER HYDROGEN ATOMS ARE INCLUDED I REMARK 3 INCLUDED IN THESE COORDINATES REMARK 4 REMARK 4 2J46 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029836. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.70 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.785 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 199458 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 18.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.26000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1JPN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% MPD, 0.1M NAACETATE, PH 4.7, 0.1M REMARK 280 MNCL2, 2MM MGCL2, PH 4.70 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 54.73650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.24800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 54.73650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.24800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 VAL A 297 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD2 ASP B 40 O HOH B 2052 2.06 REMARK 500 OD2 ASP A 212 O HOH A 2246 2.07 REMARK 500 OD2 ASP B 250 O HOH B 2210 2.17 REMARK 500 OE2 GLU B 11 O HOH B 2016 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 212 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 212 CB - CG - OD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG B 54 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 2 -4.18 79.60 REMARK 500 LYS A 96 -168.43 -120.94 REMARK 500 VAL A 237 -53.20 -125.99 REMARK 500 ALA A 256 -27.78 81.94 REMARK 500 ARG B 128 79.57 -116.73 REMARK 500 ASP B 195 163.48 176.12 REMARK 500 ARG B 252 -75.22 -130.70 REMARK 500 PRO B 276 -12.33 -49.54 REMARK 500 ASP B 296 46.67 -71.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 256 LEU A 257 140.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2009 DISTANCE = 7.24 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1400 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 46 OE1 REMARK 620 2 GLU A 207 OE1 85.8 REMARK 620 3 GLU A 207 OE2 93.9 58.2 REMARK 620 4 HOH A2310 O 87.9 101.3 159.1 REMARK 620 5 HOH A2311 O 89.5 153.7 96.4 104.4 REMARK 620 6 HOH A2312 O 176.0 90.3 84.6 92.3 94.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1400 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 46 OE1 REMARK 620 2 GLU B 46 OE2 56.4 REMARK 620 3 GLU B 207 OE1 90.9 83.4 REMARK 620 4 GLU B 207 OE2 125.4 76.0 55.9 REMARK 620 5 HOH B2245 O 91.6 81.3 159.7 107.1 REMARK 620 6 HOH B2246 O 155.7 147.8 93.2 75.7 92.7 REMARK 620 7 HOH B2247 O 74.1 127.9 114.8 155.3 85.2 82.5 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A1400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B1400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD B1299 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FFH RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 1JPJ RELATED DB: PDB REMARK 900 GMPPNP COMPLEX OF SRP GTPASE NG DOMAIN REMARK 900 RELATED ID: 1JPN RELATED DB: PDB REMARK 900 GMPPNP COMPLEX OF SRP GTPASE NG DOMAIN REMARK 900 RELATED ID: 1LS1 RELATED DB: PDB REMARK 900 T. AQUATICUS FFH NG DOMAIN AT 1.1A RESOLUTION REMARK 900 RELATED ID: 1NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 1O87 RELATED DB: PDB REMARK 900 A NEW MGGDP COMPLEX OF THE FFH NG DOMAIN REMARK 900 RELATED ID: 1OKK RELATED DB: PDB REMARK 900 A SCARILY SYMMETRIC HOMO-HETERODIMER REMARK 900 RELATED ID: 1RJ9 RELATED DB: PDB REMARK 900 STRUCTURE OF THE HETERODIMER OF THE CONSERVED GTPASEDOMAINS OF THE REMARK 900 SIGNAL RECOGNITION PARTICLE (FFH) AND ITSRECEPTOR ( FTSY) REMARK 900 RELATED ID: 1RY1 RELATED DB: PDB REMARK 900 STRUCTURE OF THE SIGNAL RECOGNITION PARTICLE INTERACTINGWITH THE REMARK 900 ELONGATION-ARRESTED RIBOSOME REMARK 900 RELATED ID: 2C03 RELATED DB: PDB REMARK 900 GDP COMPLEX OF SRP GTPASE FFH NG DOMAIN REMARK 900 RELATED ID: 2C04 RELATED DB: PDB REMARK 900 GMPPCP COMPLEX OF SRP GTPASE FFH NG DOMAIN AT ULTRA-HIGH RESOLUTION REMARK 900 RELATED ID: 2CNW RELATED DB: PDB REMARK 900 GDPALF4 COMPLEX OF THE SRP GTPASES FFH AND FTSY REMARK 900 RELATED ID: 2FFH RELATED DB: PDB REMARK 900 THE SIGNAL SEQUENCE BINDING PROTEIN FFH FROM THERMUSAQUATICUS REMARK 900 RELATED ID: 2NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 3NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 2J45 RELATED DB: PDB REMARK 900 WATER STRUCTURE OF T. AQUATICUS FFH NG DOMAIN AT 1.1A RESOLUTION DBREF 2J46 A 1 1 PDB 2J46 2J46 1 1 DBREF 2J46 A 2 297 UNP O07347 SRP54_THEAQ 1 296 DBREF 2J46 B 1 1 PDB 2J46 2J46 1 1 DBREF 2J46 B 2 297 UNP O07347 SRP54_THEAQ 1 296 SEQRES 1 A 297 MET PHE GLN GLN LEU SER ALA ARG LEU GLN GLU ALA ILE SEQRES 2 A 297 GLY ARG LEU ARG GLY ARG GLY ARG ILE THR GLU GLU ASP SEQRES 3 A 297 LEU LYS ALA THR LEU ARG GLU ILE ARG ARG ALA LEU MET SEQRES 4 A 297 ASP ALA ASP VAL ASN LEU GLU VAL ALA ARG ASP PHE VAL SEQRES 5 A 297 GLU ARG VAL ARG GLU GLU ALA LEU GLY LYS GLN VAL LEU SEQRES 6 A 297 GLU SER LEU THR PRO ALA GLU VAL ILE LEU ALA THR VAL SEQRES 7 A 297 TYR GLU ALA LEU LYS GLU ALA LEU GLY GLY GLU ALA ARG SEQRES 8 A 297 LEU PRO VAL LEU LYS ASP ARG ASN LEU TRP PHE LEU VAL SEQRES 9 A 297 GLY LEU GLN GLY SER GLY LYS THR THR THR ALA ALA LYS SEQRES 10 A 297 LEU ALA LEU TYR TYR LYS GLY LYS GLY ARG ARG PRO LEU SEQRES 11 A 297 LEU VAL ALA ALA ASP THR GLN ARG PRO ALA ALA ARG GLU SEQRES 12 A 297 GLN LEU ARG LEU LEU GLY GLU LYS VAL GLY VAL PRO VAL SEQRES 13 A 297 LEU GLU VAL MET ASP GLY GLU SER PRO GLU SER ILE ARG SEQRES 14 A 297 ARG ARG VAL GLU GLU LYS ALA ARG LEU GLU ALA ARG ASP SEQRES 15 A 297 LEU ILE LEU VAL ASP THR ALA GLY ARG LEU GLN ILE ASP SEQRES 16 A 297 GLU PRO LEU MET GLY GLU LEU ALA ARG LEU LYS GLU VAL SEQRES 17 A 297 LEU GLY PRO ASP GLU VAL LEU LEU VAL LEU ASP ALA MET SEQRES 18 A 297 THR GLY GLN GLU ALA LEU SER VAL ALA ARG ALA PHE ASP SEQRES 19 A 297 GLU LYS VAL GLY VAL THR GLY LEU VAL LEU THR LYS LEU SEQRES 20 A 297 ASP GLY ASP ALA ARG GLY GLY ALA ALA LEU SER ALA ARG SEQRES 21 A 297 HIS VAL THR GLY LYS PRO ILE TYR PHE ALA GLY VAL SER SEQRES 22 A 297 GLU LYS PRO GLU GLY LEU GLU PRO PHE TYR PRO GLU ARG SEQRES 23 A 297 LEU ALA GLY ARG ILE LEU GLY MET GLY ASP VAL SEQRES 1 B 297 MET PHE GLN GLN LEU SER ALA ARG LEU GLN GLU ALA ILE SEQRES 2 B 297 GLY ARG LEU ARG GLY ARG GLY ARG ILE THR GLU GLU ASP SEQRES 3 B 297 LEU LYS ALA THR LEU ARG GLU ILE ARG ARG ALA LEU MET SEQRES 4 B 297 ASP ALA ASP VAL ASN LEU GLU VAL ALA ARG ASP PHE VAL SEQRES 5 B 297 GLU ARG VAL ARG GLU GLU ALA LEU GLY LYS GLN VAL LEU SEQRES 6 B 297 GLU SER LEU THR PRO ALA GLU VAL ILE LEU ALA THR VAL SEQRES 7 B 297 TYR GLU ALA LEU LYS GLU ALA LEU GLY GLY GLU ALA ARG SEQRES 8 B 297 LEU PRO VAL LEU LYS ASP ARG ASN LEU TRP PHE LEU VAL SEQRES 9 B 297 GLY LEU GLN GLY SER GLY LYS THR THR THR ALA ALA LYS SEQRES 10 B 297 LEU ALA LEU TYR TYR LYS GLY LYS GLY ARG ARG PRO LEU SEQRES 11 B 297 LEU VAL ALA ALA ASP THR GLN ARG PRO ALA ALA ARG GLU SEQRES 12 B 297 GLN LEU ARG LEU LEU GLY GLU LYS VAL GLY VAL PRO VAL SEQRES 13 B 297 LEU GLU VAL MET ASP GLY GLU SER PRO GLU SER ILE ARG SEQRES 14 B 297 ARG ARG VAL GLU GLU LYS ALA ARG LEU GLU ALA ARG ASP SEQRES 15 B 297 LEU ILE LEU VAL ASP THR ALA GLY ARG LEU GLN ILE ASP SEQRES 16 B 297 GLU PRO LEU MET GLY GLU LEU ALA ARG LEU LYS GLU VAL SEQRES 17 B 297 LEU GLY PRO ASP GLU VAL LEU LEU VAL LEU ASP ALA MET SEQRES 18 B 297 THR GLY GLN GLU ALA LEU SER VAL ALA ARG ALA PHE ASP SEQRES 19 B 297 GLU LYS VAL GLY VAL THR GLY LEU VAL LEU THR LYS LEU SEQRES 20 B 297 ASP GLY ASP ALA ARG GLY GLY ALA ALA LEU SER ALA ARG SEQRES 21 B 297 HIS VAL THR GLY LYS PRO ILE TYR PHE ALA GLY VAL SER SEQRES 22 B 297 GLU LYS PRO GLU GLY LEU GLU PRO PHE TYR PRO GLU ARG SEQRES 23 B 297 LEU ALA GLY ARG ILE LEU GLY MET GLY ASP VAL HET MRD A1297 21 HET CL A1299 1 HET ACT A1300 7 HET CL A1301 1 HET CL A1302 1 HET MN A1400 1 HET CL B1298 1 HET MRD B1299 21 HET ACT B1302 7 HET MN B1400 1 HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM CL CHLORIDE ION HETNAM ACT ACETATE ION HETNAM MN MANGANESE (II) ION FORMUL 3 MRD 2(C6 H14 O2) FORMUL 4 CL 4(CL 1-) FORMUL 5 ACT 2(C2 H3 O2 1-) FORMUL 8 MN 2(MN 2+) FORMUL 13 HOH *559(H2 O) HELIX 1 1 PHE A 2 ARG A 15 1 14 HELIX 2 2 THR A 23 ALA A 41 1 19 HELIX 3 3 ASN A 44 LYS A 62 1 19 HELIX 4 4 THR A 69 LEU A 86 1 18 HELIX 5 5 LEU A 106 SER A 109 5 4 HELIX 6 6 GLY A 110 LYS A 125 1 16 HELIX 7 7 ARG A 138 GLY A 153 1 16 HELIX 8 8 SER A 164 GLU A 179 1 16 HELIX 9 9 ASP A 195 GLY A 210 1 16 HELIX 10 10 MET A 221 GLY A 223 5 3 HELIX 11 11 GLN A 224 VAL A 237 1 14 HELIX 12 12 GLY A 253 GLY A 264 1 12 HELIX 13 13 TYR A 283 LEU A 292 1 10 HELIX 14 14 PHE B 2 ARG B 15 1 14 HELIX 15 15 THR B 23 ALA B 41 1 19 HELIX 16 16 ASN B 44 LYS B 62 1 19 HELIX 17 17 THR B 69 LEU B 86 1 18 HELIX 18 18 GLY B 110 LYS B 125 1 16 HELIX 19 19 ARG B 138 VAL B 152 1 15 HELIX 20 20 SER B 164 GLU B 179 1 16 HELIX 21 21 ASP B 195 GLY B 210 1 16 HELIX 22 22 MET B 221 GLY B 223 5 3 HELIX 23 23 GLN B 224 VAL B 237 1 14 HELIX 24 24 GLY B 253 GLY B 264 1 12 HELIX 25 25 TYR B 283 LEU B 292 1 10 SHEET 1 AA 8 VAL A 156 GLU A 158 0 SHEET 2 AA 8 PRO A 129 ALA A 133 1 O LEU A 131 N LEU A 157 SHEET 3 AA 8 LEU A 183 ASP A 187 1 O LEU A 183 N LEU A 130 SHEET 4 AA 8 ASN A 99 VAL A 104 1 O ASN A 99 N ILE A 184 SHEET 5 AA 8 GLU A 213 ASP A 219 1 O GLU A 213 N PHE A 102 SHEET 6 AA 8 GLY A 241 THR A 245 1 O GLY A 241 N LEU A 216 SHEET 7 AA 8 ILE A 267 GLY A 271 1 N TYR A 268 O LEU A 242 SHEET 8 AA 8 LEU A 279 PRO A 281 -1 O GLU A 280 N ALA A 270 SHEET 1 BA 8 VAL B 156 GLU B 158 0 SHEET 2 BA 8 PRO B 129 ALA B 133 1 O LEU B 131 N LEU B 157 SHEET 3 BA 8 LEU B 183 ASP B 187 1 O LEU B 183 N LEU B 130 SHEET 4 BA 8 ASN B 99 VAL B 104 1 O ASN B 99 N ILE B 184 SHEET 5 BA 8 GLU B 213 ASP B 219 1 O GLU B 213 N PHE B 102 SHEET 6 BA 8 GLY B 241 THR B 245 1 O GLY B 241 N LEU B 216 SHEET 7 BA 8 ILE B 267 GLY B 271 1 N TYR B 268 O LEU B 242 SHEET 8 BA 8 LEU B 279 PRO B 281 -1 O GLU B 280 N ALA B 270 LINK OE1 GLU A 46 MN MN A1400 2655 1555 2.10 LINK OE1 GLU A 207 MN MN A1400 1555 1555 2.23 LINK OE2 GLU A 207 MN MN A1400 1555 1555 2.23 LINK MN MN A1400 O HOH A2310 1555 1555 2.16 LINK MN MN A1400 O HOH A2311 1555 1555 2.18 LINK MN MN A1400 O HOH A2312 1555 1555 2.19 LINK OE1 GLU B 46 MN MN B1400 2656 1555 2.22 LINK OE2 GLU B 46 MN MN B1400 2656 1555 2.40 LINK OE1 GLU B 207 MN MN B1400 1555 1555 2.23 LINK OE2 GLU B 207 MN MN B1400 1555 1555 2.34 LINK MN MN B1400 O HOH B2245 1555 1555 2.22 LINK MN MN B1400 O HOH B2246 1555 1555 2.18 LINK MN MN B1400 O HOH B2247 1555 1555 2.25 SITE 1 AC1 5 SER A 109 ASP A 219 HOH A2137 HOH A2248 SITE 2 AC1 5 HOH A2252 SITE 1 AC2 8 ALA A 133 ALA A 134 ASP A 135 ALA A 141 SITE 2 AC2 8 ARG A 142 LEU A 145 ASP A 187 THR A 188 SITE 1 AC3 3 GLN B 107 ARG B 138 LEU B 192 SITE 1 AC4 2 ARG A 138 LEU A 192 SITE 1 AC5 5 GLU A 46 GLU A 207 HOH A2310 HOH A2311 SITE 2 AC5 5 HOH A2312 SITE 1 AC6 5 LYS B 206 ARG B 260 HOH B2182 HOH B2185 SITE 2 AC6 5 HOH B2218 SITE 1 AC7 7 ALA B 133 ALA B 134 ASP B 135 ARG B 142 SITE 2 AC7 7 LEU B 145 ASP B 187 THR B 188 SITE 1 AC8 5 GLU B 46 GLU B 207 HOH B2245 HOH B2246 SITE 2 AC8 5 HOH B2247 SITE 1 AC9 10 ALA A 81 GLU A 84 ARG A 169 GLU A 207 SITE 2 AC9 10 VAL A 208 HOH A2305 HOH A2306 HOH A2307 SITE 3 AC9 10 HOH A2308 HOH A2309 SITE 1 BC1 7 GLU B 280 PRO B 281 TYR B 283 ARG B 286 SITE 2 BC1 7 LEU B 287 ARG B 290 HOH B2244 CRYST1 109.473 54.496 98.799 90.00 97.72 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009135 0.000000 0.001238 0.00000 SCALE2 0.000000 0.018350 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010214 0.00000 MTRIX1 1 -0.807780 0.054302 0.586977 64.52540 1 MTRIX2 1 0.037964 0.998473 -0.040125 0.00000 1 MTRIX3 1 -0.588260 -0.010129 -0.808609 0.00000 1